GemStats takes an error model generated by GemErr, and calculates a set of statistics based on this model - for paired-end reads, models for the first and second read in a pair are considered separately. Statistics reported include the overall mismatch, insertion, and deletion error rates; the error rate for each nucleotide; and the error rate by base position within the read. Additionally, any sequence-context words with an error rate more than two standard deviations greater than the average error rate are also reported.
